Read data

source(paste0(root.dir, "scripts/myRLib.R"))
funcset <- readLines(paste0(root.dir, "output-run_step2/fastInsulin__wtccc_t2d__wtccc_ctrl/sig_subset.set"))
funcset <- parseFuncSet(funcset)
funcset.names <- names(funcset)
xtyi.files <- strsplit("output-direction_XT_YI/fastInsulin__wtccc_t2d__wtccc_ctrl/xtyi_LDpred_p1.0000e+00.assoc.logistic:output-direction_XT_YI/fastInsulin__wtccc_t2d__wtccc_ctrl/xtyi_LDpred_p3.0000e-01.assoc.logistic:output-direction_XT_YI/fastInsulin__wtccc_t2d__wtccc_ctrl/xtyi_LDpred_p1.0000e-01.assoc.logistic:output-direction_XT_YI/fastInsulin__wtccc_t2d__wtccc_ctrl/xtyi_LDpred_p3.0000e-02.assoc.logistic:output-direction_XT_YI/fastInsulin__wtccc_t2d__wtccc_ctrl/xtyi_LDpred_p1.0000e-02.assoc.logistic:output-direction_XT_YI/fastInsulin__wtccc_t2d__wtccc_ctrl/xtyi_LDpred_p3.0000e-03.assoc.logistic:output-direction_XT_YI/fastInsulin__wtccc_t2d__wtccc_ctrl/xtyi_LDpred_p1.0000e-03.assoc.logistic:output-direction_XT_YI/fastInsulin__wtccc_t2d__wtccc_ctrl/xtyi_LDpred_p3.0000e-04.assoc.logistic:output-direction_XT_YI/fastInsulin__wtccc_t2d__wtccc_ctrl/xtyi_LDpred_p1.0000e-04.assoc.logistic", 
    ":")[[1]]
ps <- strsplit("1,0.3,0.1,0.03,0.01,0.003,0.001,0.0003,0.0001", 
    ",")[[1]]
inter.files <- strsplit("output-run_step2/fastInsulin__wtccc_t2d__wtccc_ctrl/interaction.sig_subset_LDpred_p1.0000e+00.assoc.logistic:output-run_step2/fastInsulin__wtccc_t2d__wtccc_ctrl/interaction.sig_subset_LDpred_p3.0000e-01.assoc.logistic:output-run_step2/fastInsulin__wtccc_t2d__wtccc_ctrl/interaction.sig_subset_LDpred_p1.0000e-01.assoc.logistic:output-run_step2/fastInsulin__wtccc_t2d__wtccc_ctrl/interaction.sig_subset_LDpred_p3.0000e-02.assoc.logistic:output-run_step2/fastInsulin__wtccc_t2d__wtccc_ctrl/interaction.sig_subset_LDpred_p1.0000e-02.assoc.logistic:output-run_step2/fastInsulin__wtccc_t2d__wtccc_ctrl/interaction.sig_subset_LDpred_p3.0000e-03.assoc.logistic:output-run_step2/fastInsulin__wtccc_t2d__wtccc_ctrl/interaction.sig_subset_LDpred_p1.0000e-03.assoc.logistic:output-run_step2/fastInsulin__wtccc_t2d__wtccc_ctrl/interaction.sig_subset_LDpred_p3.0000e-04.assoc.logistic:output-run_step2/fastInsulin__wtccc_t2d__wtccc_ctrl/interaction.sig_subset_LDpred_p1.0000e-04.assoc.logistic", 
    ":")[[1]]
prs.files <- strsplit("../step1/output-run_step1/fastInsulin__wtccc_t2d__wtccc_ctrl/ldpred_LDpred_p1.0000e+00.txt:../step1/output-run_step1/fastInsulin__wtccc_t2d__wtccc_ctrl/ldpred_LDpred_p3.0000e-01.txt:../step1/output-run_step1/fastInsulin__wtccc_t2d__wtccc_ctrl/ldpred_LDpred_p1.0000e-01.txt:../step1/output-run_step1/fastInsulin__wtccc_t2d__wtccc_ctrl/ldpred_LDpred_p3.0000e-02.txt:../step1/output-run_step1/fastInsulin__wtccc_t2d__wtccc_ctrl/ldpred_LDpred_p1.0000e-02.txt:../step1/output-run_step1/fastInsulin__wtccc_t2d__wtccc_ctrl/ldpred_LDpred_p3.0000e-03.txt:../step1/output-run_step1/fastInsulin__wtccc_t2d__wtccc_ctrl/ldpred_LDpred_p1.0000e-03.txt:../step1/output-run_step1/fastInsulin__wtccc_t2d__wtccc_ctrl/ldpred_LDpred_p3.0000e-04.txt:../step1/output-run_step1/fastInsulin__wtccc_t2d__wtccc_ctrl/ldpred_LDpred_p1.0000e-04.txt", 
    ":")[[1]]

Epistasis

for (i in 1:length(xtyi.files)) {
    cat("##", funcset.names[i])
    cat("
")
    cat("
")
    snp.subset <- funcset[[funcset.names[i]]]
    
    # read I ~ SNP
    prs <- read.table(paste0(root.dir, prs.files[i]), header = T)
    prs$sid <- as.character(prs$sid)
    prs.sub <- prs[prs$sid %in% snp.subset, ]
    
    # read others
    xtyi <- read.table(paste0(root.dir, xtyi.files[i]), header = T)
    xtyi$SNP <- as.character(xtyi$SNP)
    yt.xtyi <- xtyi[(xtyi$SNP %in% snp.subset) & (xtyi$SNP %in% 
        prs.sub$sid), ]
    yt.xtyi.xt <- yt.xtyi[yt.xtyi$TEST == "ADD", ]
    yt.xtyi.yi <- yt.xtyi[yt.xtyi$TEST == "PRS", ]
    inter <- read.table(paste0(root.dir, inter.files[i]), header = T)
    inter$SNP <- as.character(inter$SNP)
    inter <- inter[inter$TEST == "ADDxPRS", ]
    yt.inter <- inter[(inter$SNP %in% snp.subset) & (inter$SNP %in% 
        prs.sub$sid), ]
    
    # order all rows
    yt.xtyi.xt <- yt.xtyi.xt[order(yt.xtyi.xt$SNP), ]
    yt.xtyi.yi <- yt.xtyi.yi[order(yt.xtyi.yi$SNP), ]
    yt.inter <- yt.inter[order(yt.inter$SNP), ]
    prs.sub <- prs.sub[order(prs.sub$sid), ]
    
    # check direction
    prs.sub$nt1 <- as.character(prs.sub$nt1)
    yt.xtyi.xt$A1 <- as.character(yt.xtyi.xt$A1)
    yt.inter$A1 <- as.character(yt.inter$A1)
    if (sum(prs.sub$nt1 != yt.xtyi.xt$A1) != 0 | sum(prs.sub$nt1 != 
        yt.inter$A1) != 0) {
        print("Direction does not match. Exit!")
        quit()
    }
    
    yt.xtyi.xt.mean.std <- getMeanStd(yt.xtyi.xt$SNP, yt.xtyi.xt$P, 
        yt.xtyi.xt$OR, "Y~Gi+I (Gi)")
    yt.xtyi.yi.mean.std <- getMeanStd(yt.xtyi.yi$SNP, yt.xtyi.yi$P, 
        yt.xtyi.yi$OR, "Y~Gi+I (I)")
    yt.inter.mean.std <- getMeanStd(yt.inter$SNP, yt.inter$P, 
        yt.inter$OR, "Y~Gi*I")
    prs.sub.mean.std <- data.frame(SNP = prs.sub$sid, Mean = prs.sub$ldpred_beta, 
        Std = 0, Type = "I~Gi")
    
    # create data frame for plot
    df <- rbind(yt.xtyi.xt.mean.std, yt.xtyi.yi.mean.std, prs.sub.mean.std, 
        yt.inter.mean.std)
    ratio <- max(1, nrow(yt.inter)/40)
    cat
    p <- ggplot(df) + geom_point(aes(x = SNP, y = Mean)) + geom_errorbar(aes(x = SNP, 
        ymin = Mean - 1.96 * Std, ymax = Mean + 1.96 * Std), 
        colour = "black", width = 0.1) + geom_hline(yintercept = 0, 
        color = "red") + facet_grid(. ~ Type, scales = "free_x") + 
        coord_flip() + theme(axis.text.x = element_text(angle = 90, 
        hjust = 1))
    p2 <- ggplot(yt.inter) + geom_bar(aes(x = SNP, y = -log10(P)), 
        stat = "identity") + coord_flip() + ggtitle("Interaction P-value")
    subchunkify(p, ratio)
    subchunkify(p2, ratio)
    cat("
")
    inter.plus.gwas.pval <- cbind(yt.inter, yt.xtyi.xt$P)
    colnames(inter.plus.gwas.pval) <- c(colnames(yt.inter), "GWAS.P")
    pander(inter.plus.gwas.pval[order(inter.plus.gwas.pval$P, 
        decreasing = F), ])
    cat("
")
    cat("
")
}

p1.0000e+00

  CHR SNP BP A1 TEST NMISS OR STAT P GWAS.P
174 16 rs2099106 0 T ADDxPRS 4862 0.7585 -2.578 0.009949 1.828e-05
195 16 rs7193144 0 C ADDxPRS 4862 1.198 1.886 0.05933 3.309e-08
177 16 rs11075123 0 A ADDxPRS 4862 0.8266 -1.771 0.07662 2.422e-05
198 16 rs8050136 0 A ADDxPRS 4862 1.175 1.695 0.09009 2.894e-08
63 6 rs7767391 0 C ADDxPRS 4862 1.215 1.659 0.09703 4.991e-06
30 2 rs10929982 0 C ADDxPRS 4862 0.8228 -1.659 0.09716 9.719e-06
24 2 rs6718526 0 T ADDxPRS 4862 0.8296 -1.575 0.1152 2.828e-06
162 14 rs8012854 0 G ADDxPRS 4862 1.187 1.37 0.1708 3.746e-05
48 3 rs3846119 0 T ADDxPRS 4862 1.323 1.337 0.1814 3.977e-05
192 16 rs1121980 0 A ADDxPRS 4862 1.132 1.325 0.185 3.81e-07
180 16 rs9939973 0 A ADDxPRS 4862 1.129 1.294 0.1957 2.76e-07
183 16 rs9940128 0 A ADDxPRS 4862 1.129 1.294 0.1957 2.76e-07
204 16 rs9930506 0 G ADDxPRS 4862 1.127 1.282 0.2 1.213e-06
60 6 rs9465871 0 C ADDxPRS 4862 1.162 1.272 0.2035 1.671e-06
129 12 rs11178531 0 A ADDxPRS 4862 0.8905 -1.238 0.2156 1.296e-05
132 12 rs7132840 0 T ADDxPRS 4862 0.8912 -1.228 0.2195 1e-05
99 10 rs7901695 0 C ADDxPRS 4862 0.8892 -1.189 0.2345 1.234e-12
6 1 rs6691406 0 A ADDxPRS 4862 0.8792 -1.185 0.2359 4.095e-05
96 10 rs4074720 0 T ADDxPRS 4862 0.899 -1.11 0.2671 5.027e-11
9 2 rs12692592 0 G ADDxPRS 4862 0.8888 -1.041 0.298 1.538e-05
120 10 rs10885409 0 C ADDxPRS 4862 0.9079 -1.003 0.316 6.648e-11
153 12 rs1510937 0 C ADDxPRS 4862 1.101 1.001 0.3166 3.722e-06
168 15 rs2903265 0 A ADDxPRS 4862 1.11 0.9754 0.3294 8.396e-06
114 10 rs7077039 0 C ADDxPRS 4862 0.9106 -0.9651 0.3345 1.625e-12
123 10 rs11196208 0 C ADDxPRS 4862 0.9133 -0.9459 0.3442 4.418e-11
108 10 rs10787472 0 C ADDxPRS 4862 0.9128 -0.944 0.3452 2.5e-11
15 2 rs7593730 0 T ADDxPRS 4862 0.9024 -0.8919 0.3724 1.014e-05
150 12 rs7972188 0 C ADDxPRS 4862 1.089 0.8802 0.3787 9.519e-06
12 2 rs4077463 0 A ADDxPRS 4862 0.9037 -0.879 0.3794 1.015e-05
75 10 rs9326506 0 A ADDxPRS 4862 1.081 0.8297 0.4067 6.138e-06
27 2 rs11693602 0 C ADDxPRS 4862 0.9093 -0.8245 0.4096 5.187e-06
105 10 rs4132670 0 A ADDxPRS 4862 0.9227 -0.8131 0.4161 1.784e-12
78 10 rs9422545 0 A ADDxPRS 4862 1.078 0.7958 0.4262 7.408e-06
189 16 rs17817288 0 A ADDxPRS 4862 0.9339 -0.7264 0.4676 6.356e-06
165 15 rs2930291 0 A ADDxPRS 4862 1.068 0.6595 0.5096 6.697e-06
111 10 rs12243326 0 C ADDxPRS 4862 0.9412 -0.6031 0.5464 1.799e-10
39 2 rs17248501 0 C ADDxPRS 4862 0.9447 -0.5892 0.5557 9.926e-06
144 12 rs11178648 0 T ADDxPRS 4862 0.9494 -0.5575 0.5772 2.889e-05
69 6 rs10806665 0 A ADDxPRS 4862 0.9187 -0.5462 0.585 1.164e-05
87 10 rs7923866 0 T ADDxPRS 4862 1.05 0.4921 0.6226 4.195e-05
159 12 rs7961581 0 C ADDxPRS 4862 0.9516 -0.492 0.6227 4.27e-06
81 10 rs5015480 0 T ADDxPRS 4862 1.042 0.4186 0.6755 3.324e-05
138 12 rs10506626 0 A ADDxPRS 4862 0.9631 -0.4039 0.6863 1.479e-05
141 12 rs2270584 0 A ADDxPRS 4862 0.9635 -0.3996 0.6894 1.571e-05
33 2 rs11688935 0 G ADDxPRS 4862 1.033 0.3294 0.7419 2.414e-05
36 2 rs10931347 0 A ADDxPRS 4862 1.032 0.3179 0.7506 3.518e-05
51 6 rs10946398 0 C ADDxPRS 4862 1.028 0.2735 0.7845 3.117e-05
57 6 rs9460546 0 G ADDxPRS 4862 1.028 0.2735 0.7845 3.117e-05
3 1 rs4655595 0 G ADDxPRS 4862 0.9689 -0.1985 0.8427 5.682e-06
45 3 rs440646 0 G ADDxPRS 4862 1.015 0.155 0.8769 5.052e-05
72 9 rs10817674 0 A ADDxPRS 4862 1.004 0.0442 0.9647 4.128e-05
93 10 rs7901275 0 C ADDxPRS 4862 1.002 0.02507 0.98 8.995e-08
90 10 rs7917983 0 C ADDxPRS 4862 0.9992 -0.008209 0.9935 3.694e-08

p3.0000e-01

  CHR SNP BP A1 TEST NMISS OR STAT P GWAS.P
174 16 rs2099106 0 T ADDxPRS 4862 0.7904 -2.251 0.02437 1.986e-05
177 16 rs11075123 0 A ADDxPRS 4862 0.7997 -2.132 0.033 2.524e-05
195 16 rs7193144 0 C ADDxPRS 4862 1.186 1.829 0.06738 3.389e-08
198 16 rs8050136 0 A ADDxPRS 4862 1.162 1.617 0.1059 2.97e-08
63 6 rs7767391 0 C ADDxPRS 4862 1.201 1.603 0.1089 4.83e-06
30 2 rs10929982 0 C ADDxPRS 4862 0.8339 -1.587 0.1124 1.039e-05
162 14 rs8012854 0 G ADDxPRS 4862 1.21 1.56 0.1188 3.612e-05
24 2 rs6718526 0 T ADDxPRS 4862 0.8415 -1.496 0.1347 2.987e-06
48 3 rs3846119 0 T ADDxPRS 4862 1.336 1.417 0.1565 3.873e-05
192 16 rs1121980 0 A ADDxPRS 4862 1.123 1.268 0.2049 3.85e-07
180 16 rs9939973 0 A ADDxPRS 4862 1.12 1.243 0.214 2.802e-07
183 16 rs9940128 0 A ADDxPRS 4862 1.12 1.243 0.214 2.802e-07
60 6 rs9465871 0 C ADDxPRS 4862 1.153 1.242 0.2142 1.595e-06
6 1 rs6691406 0 A ADDxPRS 4862 0.8787 -1.226 0.2204 3.83e-05
204 16 rs9930506 0 G ADDxPRS 4862 1.114 1.183 0.2367 1.22e-06
129 12 rs11178531 0 A ADDxPRS 4862 0.8988 -1.168 0.2429 1.22e-05
132 12 rs7132840 0 T ADDxPRS 4862 0.8996 -1.156 0.2475 9.425e-06
99 10 rs7901695 0 C ADDxPRS 4862 0.8961 -1.142 0.2533 9.706e-13
96 10 rs4074720 0 T ADDxPRS 4862 0.9006 -1.118 0.2634 4.309e-11
153 12 rs1510937 0 C ADDxPRS 4862 1.106 1.084 0.2785 3.804e-06
9 2 rs12692592 0 G ADDxPRS 4862 0.8925 -1.031 0.3025 1.615e-05
120 10 rs10885409 0 C ADDxPRS 4862 0.9119 -0.9807 0.3267 5.665e-11
114 10 rs7077039 0 C ADDxPRS 4862 0.9117 -0.9763 0.3289 1.386e-12
123 10 rs11196208 0 C ADDxPRS 4862 0.9155 -0.9433 0.3455 3.702e-11
150 12 rs7972188 0 C ADDxPRS 4862 1.092 0.933 0.3508 9.74e-06
12 2 rs4077463 0 A ADDxPRS 4862 0.9039 -0.9014 0.3674 1.069e-05
15 2 rs7593730 0 T ADDxPRS 4862 0.904 -0.8999 0.3682 1.069e-05
108 10 rs10787472 0 C ADDxPRS 4862 0.9194 -0.8917 0.3726 2.119e-11
189 16 rs17817288 0 A ADDxPRS 4862 0.9217 -0.8886 0.3742 6.429e-06
168 15 rs2903265 0 A ADDxPRS 4862 1.093 0.8576 0.3911 7.722e-06
27 2 rs11693602 0 C ADDxPRS 4862 0.911 -0.8304 0.4063 5.463e-06
75 10 rs9326506 0 A ADDxPRS 4862 1.076 0.8006 0.4233 5.931e-06
78 10 rs9422545 0 A ADDxPRS 4862 1.073 0.7684 0.4422 7.169e-06
165 15 rs2930291 0 A ADDxPRS 4862 1.072 0.7232 0.4696 6.644e-06
105 10 rs4132670 0 A ADDxPRS 4862 0.9341 -0.708 0.479 1.425e-12
144 12 rs11178648 0 T ADDxPRS 4862 0.9447 -0.6251 0.5319 2.776e-05
39 2 rs17248501 0 C ADDxPRS 4862 0.9479 -0.5668 0.5708 9.834e-06
69 6 rs10806665 0 A ADDxPRS 4862 0.9225 -0.5344 0.5931 1.229e-05
141 12 rs2270584 0 A ADDxPRS 4862 0.9567 -0.4864 0.6267 1.511e-05
138 12 rs10506626 0 A ADDxPRS 4862 0.9567 -0.4855 0.6273 1.42e-05
111 10 rs12243326 0 C ADDxPRS 4862 0.9566 -0.4537 0.65 1.516e-10
87 10 rs7923866 0 T ADDxPRS 4862 1.04 0.4089 0.6826 4.085e-05
45 3 rs440646 0 G ADDxPRS 4862 1.038 0.3928 0.6945 5.107e-05
159 12 rs7961581 0 C ADDxPRS 4862 0.9648 -0.3657 0.7146 4.194e-06
81 10 rs5015480 0 T ADDxPRS 4862 1.029 0.3021 0.7626 3.204e-05
51 6 rs10946398 0 C ADDxPRS 4862 1.029 0.2911 0.771 3.12e-05
57 6 rs9460546 0 G ADDxPRS 4862 1.029 0.2911 0.771 3.12e-05
33 2 rs11688935 0 G ADDxPRS 4862 1.026 0.2661 0.7902 2.406e-05
36 2 rs10931347 0 A ADDxPRS 4862 1.025 0.2592 0.7955 3.505e-05
3 1 rs4655595 0 G ADDxPRS 4862 1.03 0.1896 0.8497 5.709e-06
93 10 rs7901275 0 C ADDxPRS 4862 0.9947 -0.05865 0.9532 8.335e-08
90 10 rs7917983 0 C ADDxPRS 4862 0.9966 -0.03736 0.9702 3.346e-08
72 9 rs10817674 0 A ADDxPRS 4862 1.001 0.00698 0.9944 4.109e-05

p1.0000e-01

  CHR SNP BP A1 TEST NMISS OR STAT P GWAS.P
177 16 rs11075123 0 A ADDxPRS 4862 0.7804 -2.634 0.008446 2.823e-05
162 14 rs8012854 0 G ADDxPRS 4862 1.211 1.752 0.07971 3.432e-05
195 16 rs7193144 0 C ADDxPRS 4862 1.136 1.526 0.1271 3.976e-08
174 16 rs2099106 0 T ADDxPRS 4862 0.8714 -1.474 0.1405 2.301e-05
63 6 rs7767391 0 C ADDxPRS 4862 1.158 1.428 0.1534 4.901e-06
48 3 rs3846119 0 T ADDxPRS 4862 1.282 1.36 0.1739 3.675e-05
30 2 rs10929982 0 C ADDxPRS 4862 0.8728 -1.319 0.1872 1.204e-05
198 16 rs8050136 0 A ADDxPRS 4862 1.113 1.29 0.1972 3.503e-08
6 1 rs6691406 0 A ADDxPRS 4862 0.887 -1.271 0.2036 3.57e-05
24 2 rs6718526 0 T ADDxPRS 4862 0.8809 -1.223 0.2212 3.388e-06
153 12 rs1510937 0 C ADDxPRS 4862 1.104 1.191 0.2335 4.208e-06
60 6 rs9465871 0 C ADDxPRS 4862 1.124 1.129 0.2589 1.576e-06
189 16 rs17817288 0 A ADDxPRS 4862 0.916 -1.068 0.2854 7.03e-06
96 10 rs4074720 0 T ADDxPRS 4862 0.9167 -1.036 0.3004 3.201e-11
192 16 rs1121980 0 A ADDxPRS 4862 1.088 1.027 0.3044 4.247e-07
99 10 rs7901695 0 C ADDxPRS 4862 0.9163 -1.018 0.3086 5.346e-13
150 12 rs7972188 0 C ADDxPRS 4862 1.089 1.015 0.3103 1.087e-05
129 12 rs11178531 0 A ADDxPRS 4862 0.9203 -1.01 0.3123 1.151e-05
180 16 rs9939973 0 A ADDxPRS 4862 1.086 1.008 0.3133 3.11e-07
183 16 rs9940128 0 A ADDxPRS 4862 1.086 1.008 0.3133 3.11e-07
132 12 rs7132840 0 T ADDxPRS 4862 0.9212 -0.9975 0.3185 8.946e-06
3 1 rs4655595 0 G ADDxPRS 4862 1.136 0.9169 0.3592 5.631e-06
9 2 rs12692592 0 G ADDxPRS 4862 0.9134 -0.9167 0.3593 1.825e-05
114 10 rs7077039 0 C ADDxPRS 4862 0.9265 -0.8985 0.3689 1.005e-12
204 16 rs9930506 0 G ADDxPRS 4862 1.073 0.8607 0.3894 1.361e-06
12 2 rs4077463 0 A ADDxPRS 4862 0.918 -0.8515 0.3945 1.216e-05
45 3 rs440646 0 G ADDxPRS 4862 1.074 0.8505 0.395 4.975e-05
123 10 rs11196208 0 C ADDxPRS 4862 0.9313 -0.8474 0.3968 2.593e-11
120 10 rs10885409 0 C ADDxPRS 4862 0.9313 -0.8434 0.399 4.097e-11
15 2 rs7593730 0 T ADDxPRS 4862 0.9208 -0.8201 0.4121 1.224e-05
144 12 rs11178648 0 T ADDxPRS 4862 0.9378 -0.7809 0.4349 2.672e-05
165 15 rs2930291 0 A ADDxPRS 4862 1.068 0.7616 0.4463 5.93e-06
27 2 rs11693602 0 C ADDxPRS 4862 0.9275 -0.7479 0.4545 6.305e-06
108 10 rs10787472 0 C ADDxPRS 4862 0.9435 -0.6892 0.4907 1.509e-11
141 12 rs2270584 0 A ADDxPRS 4862 0.945 -0.6877 0.4916 1.453e-05
138 12 rs10506626 0 A ADDxPRS 4862 0.9458 -0.6771 0.4983 1.368e-05
75 10 rs9326506 0 A ADDxPRS 4862 1.055 0.6536 0.5134 5.797e-06
78 10 rs9422545 0 A ADDxPRS 4862 1.052 0.6265 0.531 7.025e-06
105 10 rs4132670 0 A ADDxPRS 4862 0.9571 -0.5097 0.6103 8.103e-13
168 15 rs2903265 0 A ADDxPRS 4862 1.047 0.4892 0.6247 7.044e-06
39 2 rs17248501 0 C ADDxPRS 4862 0.962 -0.4562 0.6482 9.461e-06
69 6 rs10806665 0 A ADDxPRS 4862 0.944 -0.4261 0.67 1.335e-05
51 6 rs10946398 0 C ADDxPRS 4862 1.031 0.3535 0.7237 3.353e-05
57 6 rs9460546 0 G ADDxPRS 4862 1.031 0.3535 0.7237 3.353e-05
93 10 rs7901275 0 C ADDxPRS 4862 0.982 -0.2243 0.8226 7.141e-08
87 10 rs7923866 0 T ADDxPRS 4862 1.015 0.1714 0.8639 3.72e-05
111 10 rs12243326 0 C ADDxPRS 4862 0.9887 -0.1299 0.8966 9.187e-11
90 10 rs7917983 0 C ADDxPRS 4862 0.9914 -0.1057 0.9158 2.74e-08
36 2 rs10931347 0 A ADDxPRS 4862 1.009 0.1056 0.9159 3.402e-05
33 2 rs11688935 0 G ADDxPRS 4862 1.009 0.1011 0.9195 2.338e-05
159 12 rs7961581 0 C ADDxPRS 4862 0.9918 -0.0941 0.925 4.344e-06
72 9 rs10817674 0 A ADDxPRS 4862 1.008 0.08849 0.9295 4.218e-05
81 10 rs5015480 0 T ADDxPRS 4862 1.005 0.06124 0.9512 2.899e-05

p3.0000e-02

  CHR SNP BP A1 TEST NMISS OR STAT P GWAS.P
177 16 rs11075123 0 A ADDxPRS 4862 0.7947 -2.83 0.00465 3.248e-05
162 14 rs8012854 0 G ADDxPRS 4862 1.163 1.628 0.1035 3.358e-05
3 1 rs4655595 0 G ADDxPRS 4862 1.213 1.626 0.1039 5.605e-06
153 12 rs1510937 0 C ADDxPRS 4862 1.096 1.288 0.1978 4.803e-06
6 1 rs6691406 0 A ADDxPRS 4862 0.9029 -1.255 0.2095 3.743e-05
45 3 rs440646 0 G ADDxPRS 4862 1.094 1.253 0.2101 4.49e-05
150 12 rs7972188 0 C ADDxPRS 4862 1.083 1.095 0.2737 1.255e-05
189 16 rs17817288 0 A ADDxPRS 4862 0.9282 -1.055 0.2915 8.416e-06
144 12 rs11178648 0 T ADDxPRS 4862 0.928 -1.04 0.2981 2.663e-05
48 3 rs3846119 0 T ADDxPRS 4862 1.172 1.023 0.3065 3.473e-05
141 12 rs2270584 0 A ADDxPRS 4862 0.9299 -1.012 0.3115 1.442e-05
138 12 rs10506626 0 A ADDxPRS 4862 0.931 -0.9945 0.32 1.368e-05
63 6 rs7767391 0 C ADDxPRS 4862 1.091 0.9872 0.3236 5.74e-06
195 16 rs7193144 0 C ADDxPRS 4862 1.065 0.8818 0.3779 5.422e-08
129 12 rs11178531 0 A ADDxPRS 4862 0.9414 -0.8471 0.3969 1.165e-05
132 12 rs7132840 0 T ADDxPRS 4862 0.9426 -0.8283 0.4075 9.152e-06
30 2 rs10929982 0 C ADDxPRS 4862 0.9289 -0.8181 0.4133 1.366e-05
60 6 rs9465871 0 C ADDxPRS 4862 1.074 0.8031 0.4219 1.817e-06
96 10 rs4074720 0 T ADDxPRS 4862 0.9451 -0.7837 0.4332 2.495e-11
24 2 rs6718526 0 T ADDxPRS 4862 0.9355 -0.7387 0.4601 3.812e-06
99 10 rs7901695 0 C ADDxPRS 4862 0.9471 -0.736 0.4617 2.634e-13
198 16 rs8050136 0 A ADDxPRS 4862 1.049 0.6647 0.5063 4.8e-08
165 15 rs2930291 0 A ADDxPRS 4862 1.049 0.6451 0.5189 4.617e-06
114 10 rs7077039 0 C ADDxPRS 4862 0.9546 -0.6397 0.5224 7.642e-13
12 2 rs4077463 0 A ADDxPRS 4862 0.9484 -0.6113 0.541 1.382e-05
9 2 rs12692592 0 G ADDxPRS 4862 0.9497 -0.6066 0.5441 2.059e-05
192 16 rs1121980 0 A ADDxPRS 4862 1.041 0.5752 0.5651 5.207e-07
180 16 rs9939973 0 A ADDxPRS 4862 1.041 0.5633 0.5733 3.813e-07
183 16 rs9940128 0 A ADDxPRS 4862 1.041 0.5633 0.5733 3.813e-07
123 10 rs11196208 0 C ADDxPRS 4862 0.9607 -0.5572 0.5774 1.941e-11
15 2 rs7593730 0 T ADDxPRS 4862 0.9533 -0.5509 0.5817 1.406e-05
120 10 rs10885409 0 C ADDxPRS 4862 0.9633 -0.518 0.6044 3.123e-11
27 2 rs11693602 0 C ADDxPRS 4862 0.9583 -0.4911 0.6234 7.376e-06
51 6 rs10946398 0 C ADDxPRS 4862 1.034 0.4518 0.6514 3.972e-05
57 6 rs9460546 0 G ADDxPRS 4862 1.034 0.4518 0.6514 3.972e-05
174 16 rs2099106 0 T ADDxPRS 4862 0.9668 -0.4223 0.6728 2.518e-05
93 10 rs7901275 0 C ADDxPRS 4862 0.9731 -0.3904 0.6962 6.199e-08
72 9 rs10817674 0 A ADDxPRS 4862 1.028 0.3727 0.7094 4.585e-05
204 16 rs9930506 0 G ADDxPRS 4862 1.024 0.3401 0.7338 1.743e-06
108 10 rs10787472 0 C ADDxPRS 4862 0.9762 -0.3333 0.7389 1.116e-11
111 10 rs12243326 0 C ADDxPRS 4862 1.021 0.2817 0.7782 4.602e-11
81 10 rs5015480 0 T ADDxPRS 4862 0.9804 -0.2728 0.785 2.576e-05
69 6 rs10806665 0 A ADDxPRS 4862 0.9693 -0.2664 0.7899 1.359e-05
75 10 rs9326506 0 A ADDxPRS 4862 1.019 0.2655 0.7906 6.165e-06
78 10 rs9422545 0 A ADDxPRS 4862 1.018 0.2493 0.8031 7.48e-06
39 2 rs17248501 0 C ADDxPRS 4862 0.9835 -0.228 0.8197 9.116e-06
159 12 rs7961581 0 C ADDxPRS 4862 1.017 0.2275 0.82 4.887e-06
105 10 rs4132670 0 A ADDxPRS 4862 0.9841 -0.217 0.8282 4.106e-13
87 10 rs7923866 0 T ADDxPRS 4862 0.9859 -0.1936 0.8465 3.203e-05
90 10 rs7917983 0 C ADDxPRS 4862 0.9867 -0.1905 0.8489 2.285e-08
33 2 rs11688935 0 G ADDxPRS 4862 0.9926 -0.099 0.9211 2.212e-05
168 15 rs2903265 0 A ADDxPRS 4862 0.9939 -0.07672 0.9388 7.475e-06
36 2 rs10931347 0 A ADDxPRS 4862 0.9943 -0.07618 0.9393 3.215e-05

p1.0000e-02

  CHR SNP BP A1 TEST NMISS OR STAT P GWAS.P
177 16 rs11075123 0 A ADDxPRS 4862 0.8009 -2.673 0.007524 3.301e-05
45 3 rs440646 0 G ADDxPRS 4862 1.121 1.562 0.1184 4.146e-05
3 1 rs4655595 0 G ADDxPRS 4862 1.192 1.445 0.1484 5.598e-06
162 14 rs8012854 0 G ADDxPRS 4862 1.14 1.396 0.1628 3.415e-05
141 12 rs2270584 0 A ADDxPRS 4862 0.912 -1.237 0.2162 1.394e-05
144 12 rs11178648 0 T ADDxPRS 4862 0.9129 -1.222 0.2217 2.608e-05
138 12 rs10506626 0 A ADDxPRS 4862 0.913 -1.221 0.2222 1.329e-05
153 12 rs1510937 0 C ADDxPRS 4862 1.092 1.197 0.2313 5.033e-06
6 1 rs6691406 0 A ADDxPRS 4862 0.9041 -1.195 0.2321 3.985e-05
150 12 rs7972188 0 C ADDxPRS 4862 1.076 0.9764 0.3289 1.308e-05
129 12 rs11178531 0 A ADDxPRS 4862 0.9368 -0.8844 0.3765 1.154e-05
51 6 rs10946398 0 C ADDxPRS 4862 1.067 0.8492 0.3957 4.52e-05
57 6 rs9460546 0 G ADDxPRS 4862 1.067 0.8492 0.3957 4.52e-05
132 12 rs7132840 0 T ADDxPRS 4862 0.9394 -0.846 0.3975 9.126e-06
189 16 rs17817288 0 A ADDxPRS 4862 0.9405 -0.8423 0.3996 9.393e-06
111 10 rs12243326 0 C ADDxPRS 4862 1.061 0.7639 0.4449 3.556e-11
63 6 rs7767391 0 C ADDxPRS 4862 1.066 0.7029 0.4821 6.752e-06
72 9 rs10817674 0 A ADDxPRS 4862 1.052 0.6756 0.4993 5.184e-05
159 12 rs7961581 0 C ADDxPRS 4862 1.053 0.6557 0.512 5.225e-06
60 6 rs9465871 0 C ADDxPRS 4862 1.061 0.647 0.5176 2.128e-06
30 2 rs10929982 0 C ADDxPRS 4862 0.9464 -0.5855 0.5582 1.498e-05
24 2 rs6718526 0 T ADDxPRS 4862 0.9513 -0.5325 0.5944 4.231e-06
12 2 rs4077463 0 A ADDxPRS 4862 0.9581 -0.4766 0.6337 1.514e-05
165 15 rs2930291 0 A ADDxPRS 4862 1.035 0.461 0.6448 3.565e-06
9 2 rs12692592 0 G ADDxPRS 4862 0.9624 -0.4365 0.6625 2.239e-05
81 10 rs5015480 0 T ADDxPRS 4862 0.9687 -0.4273 0.6691 2.498e-05
15 2 rs7593730 0 T ADDxPRS 4862 0.9643 -0.4051 0.6854 1.547e-05
108 10 rs10787472 0 C ADDxPRS 4862 1.028 0.3767 0.7064 1.212e-11
87 10 rs7923866 0 T ADDxPRS 4862 0.9745 -0.3409 0.7332 2.982e-05
27 2 rs11693602 0 C ADDxPRS 4862 0.9699 -0.3403 0.7336 8.242e-06
168 15 rs2903265 0 A ADDxPRS 4862 0.9725 -0.3397 0.7341 9.059e-06
48 3 rs3846119 0 T ADDxPRS 4862 1.053 0.3294 0.7419 3.125e-05
105 10 rs4132670 0 A ADDxPRS 4862 1.024 0.3125 0.7547 3.468e-13
174 16 rs2099106 0 T ADDxPRS 4862 1.023 0.2736 0.7844 2.412e-05
33 2 rs11688935 0 G ADDxPRS 4862 0.9801 -0.2583 0.7962 2.118e-05
195 16 rs7193144 0 C ADDxPRS 4862 1.019 0.2512 0.8016 6.615e-08
120 10 rs10885409 0 C ADDxPRS 4862 1.016 0.2148 0.83 3.415e-11
36 2 rs10931347 0 A ADDxPRS 4862 0.9839 -0.2085 0.8348 3.089e-05
39 2 rs17248501 0 C ADDxPRS 4862 0.9853 -0.1983 0.8428 9.282e-06
93 10 rs7901275 0 C ADDxPRS 4862 0.9877 -0.1717 0.8637 6.893e-08
123 10 rs11196208 0 C ADDxPRS 4862 1.013 0.1705 0.8646 2.137e-11
99 10 rs7901695 0 C ADDxPRS 4862 0.9872 -0.1694 0.8654 2.254e-13
192 16 rs1121980 0 A ADDxPRS 4862 1.009 0.1294 0.897 5.831e-07
204 16 rs9930506 0 G ADDxPRS 4862 0.9914 -0.12 0.9045 2.022e-06
180 16 rs9939973 0 A ADDxPRS 4862 1.008 0.114 0.9092 4.266e-07
183 16 rs9940128 0 A ADDxPRS 4862 1.008 0.114 0.9092 4.266e-07
96 10 rs4074720 0 T ADDxPRS 4862 0.9931 -0.094 0.9251 2.772e-11
198 16 rs8050136 0 A ADDxPRS 4862 1.006 0.0879 0.93 5.796e-08
90 10 rs7917983 0 C ADDxPRS 4862 1.006 0.0806 0.9358 2.508e-08
78 10 rs9422545 0 A ADDxPRS 4862 0.9947 -0.07369 0.9413 7.885e-06
75 10 rs9326506 0 A ADDxPRS 4862 0.9952 -0.06674 0.9468 6.492e-06
69 6 rs10806665 0 A ADDxPRS 4862 1.008 0.06241 0.9502 1.241e-05
114 10 rs7077039 0 C ADDxPRS 4862 1.003 0.03492 0.9721 8.531e-13

p3.0000e-03

  CHR SNP BP A1 TEST NMISS OR STAT P GWAS.P
177 16 rs11075123 0 A ADDxPRS 4862 0.8036 -2.205 0.02748 2.918e-05
45 3 rs440646 0 G ADDxPRS 4862 1.175 1.829 0.06742 3.85e-05
162 14 rs8012854 0 G ADDxPRS 4862 1.215 1.708 0.0876 3.483e-05
159 12 rs7961581 0 C ADDxPRS 4862 1.133 1.302 0.1929 5.367e-06
51 6 rs10946398 0 C ADDxPRS 4862 1.126 1.296 0.195 4.792e-05
57 6 rs9460546 0 G ADDxPRS 4862 1.126 1.296 0.195 4.792e-05
111 10 rs12243326 0 C ADDxPRS 4862 1.121 1.223 0.2215 4.02e-11
108 10 rs10787472 0 C ADDxPRS 4862 1.108 1.152 0.2494 1.725e-11
141 12 rs2270584 0 A ADDxPRS 4862 0.9027 -1.134 0.2567 1.395e-05
144 12 rs11178648 0 T ADDxPRS 4862 0.9026 -1.134 0.2569 2.648e-05
138 12 rs10506626 0 A ADDxPRS 4862 0.9033 -1.126 0.2603 1.324e-05
120 10 rs10885409 0 C ADDxPRS 4862 1.102 1.1 0.2714 4.556e-11
105 10 rs4132670 0 A ADDxPRS 4862 1.103 1.06 0.2893 4.741e-13
123 10 rs11196208 0 C ADDxPRS 4862 1.097 1.04 0.2981 2.854e-11
6 1 rs6691406 0 A ADDxPRS 4862 0.9021 -1.002 0.3163 3.755e-05
114 10 rs7077039 0 C ADDxPRS 4862 1.081 0.8761 0.381 1.215e-12
72 9 rs10817674 0 A ADDxPRS 4862 1.073 0.7766 0.4374 5.564e-05
60 6 rs9465871 0 C ADDxPRS 4862 1.083 0.7239 0.4691 2.217e-06
129 12 rs11178531 0 A ADDxPRS 4862 0.9378 -0.7217 0.4705 1.138e-05
96 10 rs4074720 0 T ADDxPRS 4862 1.065 0.7038 0.4816 4.071e-11
69 6 rs10806665 0 A ADDxPRS 4862 1.104 0.6772 0.4983 1.025e-05
189 16 rs17817288 0 A ADDxPRS 4862 0.9423 -0.6753 0.4995 1.025e-05
12 2 rs4077463 0 A ADDxPRS 4862 0.9293 -0.675 0.4997 1.937e-05
153 12 rs1510937 0 C ADDxPRS 4862 1.06 0.6563 0.5116 5.29e-06
132 12 rs7132840 0 T ADDxPRS 4862 0.9439 -0.6488 0.5164 9.05e-06
63 6 rs7767391 0 C ADDxPRS 4862 1.073 0.6416 0.5211 7.087e-06
99 10 rs7901695 0 C ADDxPRS 4862 1.06 0.6277 0.5302 3.159e-13
30 2 rs10929982 0 C ADDxPRS 4862 0.9309 -0.6248 0.5321 1.903e-05
90 10 rs7917983 0 C ADDxPRS 4862 1.056 0.6214 0.5343 3.239e-08
3 1 rs4655595 0 G ADDxPRS 4862 1.093 0.6081 0.5431 4.767e-06
15 2 rs7593730 0 T ADDxPRS 4862 0.9365 -0.603 0.5465 1.987e-05
24 2 rs6718526 0 T ADDxPRS 4862 0.9367 -0.5745 0.5656 5.517e-06
174 16 rs2099106 0 T ADDxPRS 4862 1.058 0.571 0.568 2.174e-05
9 2 rs12692592 0 G ADDxPRS 4862 0.941 -0.5706 0.5683 2.823e-05
204 16 rs9930506 0 G ADDxPRS 4862 0.9536 -0.5428 0.5872 2.235e-06
48 3 rs3846119 0 T ADDxPRS 4862 0.9102 -0.5235 0.6007 2.833e-05
27 2 rs11693602 0 C ADDxPRS 4862 0.9501 -0.4701 0.6383 1.076e-05
150 12 rs7972188 0 C ADDxPRS 4862 1.041 0.4438 0.6572 1.328e-05
93 10 rs7901275 0 C ADDxPRS 4862 1.032 0.3615 0.7177 8.911e-08
198 16 rs8050136 0 A ADDxPRS 4862 0.9692 -0.3519 0.7249 6.624e-08
165 15 rs2930291 0 A ADDxPRS 4862 1.031 0.3405 0.7335 2.854e-06
81 10 rs5015480 0 T ADDxPRS 4862 0.9701 -0.3405 0.7335 2.395e-05
180 16 rs9939973 0 A ADDxPRS 4862 0.9707 -0.3378 0.7355 4.58e-07
183 16 rs9940128 0 A ADDxPRS 4862 0.9707 -0.3378 0.7355 4.58e-07
78 10 rs9422545 0 A ADDxPRS 4862 0.9708 -0.3368 0.7363 8.682e-06
39 2 rs17248501 0 C ADDxPRS 4862 0.9706 -0.3335 0.7388 9.325e-06
33 2 rs11688935 0 G ADDxPRS 4862 0.969 -0.3325 0.7395 1.982e-05
75 10 rs9326506 0 A ADDxPRS 4862 0.9723 -0.3193 0.7495 7.131e-06
192 16 rs1121980 0 A ADDxPRS 4862 0.9739 -0.301 0.7634 6.268e-07
195 16 rs7193144 0 C ADDxPRS 4862 0.9775 -0.2558 0.7981 7.746e-08
36 2 rs10931347 0 A ADDxPRS 4862 0.9767 -0.2488 0.8035 2.91e-05
87 10 rs7923866 0 T ADDxPRS 4862 0.9797 -0.2236 0.823 2.795e-05
168 15 rs2903265 0 A ADDxPRS 4862 0.9854 -0.1483 0.8821 1.054e-05

p1.0000e-03

  CHR SNP BP A1 TEST NMISS OR STAT P GWAS.P
162 14 rs8012854 0 G ADDxPRS 4862 1.321 2.082 0.03736 3.791e-05
177 16 rs11075123 0 A ADDxPRS 4862 0.7983 -1.955 0.05053 2.568e-05
45 3 rs440646 0 G ADDxPRS 4862 1.22 1.92 0.05486 3.675e-05
159 12 rs7961581 0 C ADDxPRS 4862 1.214 1.735 0.08275 5.47e-06
108 10 rs10787472 0 C ADDxPRS 4862 1.165 1.484 0.1379 3.149e-11
51 6 rs10946398 0 C ADDxPRS 4862 1.167 1.454 0.1458 4.782e-05
57 6 rs9460546 0 G ADDxPRS 4862 1.167 1.454 0.1458 4.782e-05
120 10 rs10885409 0 C ADDxPRS 4862 1.161 1.45 0.1469 7.807e-11
123 10 rs11196208 0 C ADDxPRS 4862 1.152 1.381 0.1673 4.891e-11
105 10 rs4132670 0 A ADDxPRS 4862 1.159 1.36 0.1738 1.089e-12
111 10 rs12243326 0 C ADDxPRS 4862 1.149 1.269 0.2045 7.726e-11
114 10 rs7077039 0 C ADDxPRS 4862 1.137 1.244 0.2134 2.257e-12
96 10 rs4074720 0 T ADDxPRS 4862 1.122 1.113 0.2659 7.565e-11
69 6 rs10806665 0 A ADDxPRS 4862 1.213 1.112 0.2663 8.867e-06
12 2 rs4077463 0 A ADDxPRS 4862 0.876 -1.038 0.2991 2.381e-05
48 3 rs3846119 0 T ADDxPRS 4862 0.8089 -1.032 0.3021 2.64e-05
99 10 rs7901695 0 C ADDxPRS 4862 1.112 0.9808 0.3267 7.382e-13
15 2 rs7593730 0 T ADDxPRS 4862 0.8836 -0.9717 0.3312 2.445e-05
90 10 rs7917983 0 C ADDxPRS 4862 1.104 0.9641 0.335 4.844e-08
144 12 rs11178648 0 T ADDxPRS 4862 0.9111 -0.8878 0.3747 2.762e-05
9 2 rs12692592 0 G ADDxPRS 4862 0.8948 -0.8865 0.3753 3.438e-05
6 1 rs6691406 0 A ADDxPRS 4862 0.8993 -0.881 0.3783 3.416e-05
30 2 rs10929982 0 C ADDxPRS 4862 0.8925 -0.8486 0.3961 2.316e-05
141 12 rs2270584 0 A ADDxPRS 4862 0.9154 -0.8443 0.3985 1.445e-05
138 12 rs10506626 0 A ADDxPRS 4862 0.9154 -0.8438 0.3988 1.363e-05
93 10 rs7901275 0 C ADDxPRS 4862 1.087 0.8138 0.4158 1.286e-07
60 6 rs9465871 0 C ADDxPRS 4862 1.104 0.7704 0.4411 2.142e-06
27 2 rs11693602 0 C ADDxPRS 4862 0.9069 -0.7665 0.4434 1.334e-05
24 2 rs6718526 0 T ADDxPRS 4862 0.9033 -0.7635 0.4452 6.854e-06
72 9 rs10817674 0 A ADDxPRS 4862 1.073 0.6702 0.5027 6.003e-05
63 6 rs7767391 0 C ADDxPRS 4862 1.089 0.669 0.5035 6.839e-06
204 16 rs9930506 0 G ADDxPRS 4862 0.9389 -0.6186 0.5362 2.362e-06
189 16 rs17817288 0 A ADDxPRS 4862 0.9394 -0.6106 0.5414 1.126e-05
174 16 rs2099106 0 T ADDxPRS 4862 1.072 0.6008 0.548 1.993e-05
129 12 rs11178531 0 A ADDxPRS 4862 0.9451 -0.5471 0.5843 1.147e-05
33 2 rs11688935 0 G ADDxPRS 4862 0.9472 -0.4922 0.6226 1.91e-05
180 16 rs9939973 0 A ADDxPRS 4862 0.9536 -0.4647 0.6421 4.975e-07
183 16 rs9940128 0 A ADDxPRS 4862 0.9536 -0.4647 0.6421 4.975e-07
132 12 rs7132840 0 T ADDxPRS 4862 0.9538 -0.4579 0.647 9.144e-06
198 16 rs8050136 0 A ADDxPRS 4862 0.9578 -0.418 0.6759 7.254e-08
192 16 rs1121980 0 A ADDxPRS 4862 0.9589 -0.4109 0.6811 6.788e-07
165 15 rs2930291 0 A ADDxPRS 4862 1.043 0.401 0.6884 2.605e-06
36 2 rs10931347 0 A ADDxPRS 4862 0.9579 -0.39 0.6965 2.827e-05
39 2 rs17248501 0 C ADDxPRS 4862 0.9626 -0.3669 0.7137 9.181e-06
195 16 rs7193144 0 C ADDxPRS 4862 0.9639 -0.3568 0.7213 8.671e-08
78 10 rs9422545 0 A ADDxPRS 4862 0.9656 -0.3412 0.733 9.417e-06
81 10 rs5015480 0 T ADDxPRS 4862 0.9662 -0.3312 0.7405 2.259e-05
75 10 rs9326506 0 A ADDxPRS 4862 0.9678 -0.3193 0.7495 7.724e-06
168 15 rs2903265 0 A ADDxPRS 4862 1.023 0.194 0.8462 1.134e-05
153 12 rs1510937 0 C ADDxPRS 4862 1.019 0.1824 0.8552 5.579e-06
3 1 rs4655595 0 G ADDxPRS 4862 0.9928 -0.04212 0.9664 3.91e-06
87 10 rs7923866 0 T ADDxPRS 4862 0.9973 -0.025 0.9801 2.683e-05
150 12 rs7972188 0 C ADDxPRS 4862 1.001 0.009705 0.9923 1.363e-05

p3.0000e-04

  CHR SNP BP A1 TEST NMISS OR STAT P GWAS.P
162 14 rs8012854 0 G ADDxPRS 4862 1.512 2.685 0.007257 3.955e-05
45 3 rs440646 0 G ADDxPRS 4862 1.273 2.043 0.04102 3.438e-05
177 16 rs11075123 0 A ADDxPRS 4862 0.7804 -1.885 0.05944 2.404e-05
159 12 rs7961581 0 C ADDxPRS 4862 1.251 1.772 0.07641 5.821e-06
51 6 rs10946398 0 C ADDxPRS 4862 1.203 1.538 0.124 4.721e-05
57 6 rs9460546 0 G ADDxPRS 4862 1.203 1.538 0.124 4.721e-05
12 2 rs4077463 0 A ADDxPRS 4862 0.807 -1.471 0.1412 2.66e-05
15 2 rs7593730 0 T ADDxPRS 4862 0.8138 -1.414 0.1574 2.726e-05
108 10 rs10787472 0 C ADDxPRS 4862 1.168 1.33 0.1834 4.2e-11
105 10 rs4132670 0 A ADDxPRS 4862 1.174 1.302 0.1928 1.722e-12
120 10 rs10885409 0 C ADDxPRS 4862 1.161 1.276 0.2019 1.02e-10
9 2 rs12692592 0 G ADDxPRS 4862 0.8328 -1.276 0.2019 3.802e-05
48 3 rs3846119 0 T ADDxPRS 4862 0.7443 -1.267 0.2053 2.491e-05
123 10 rs11196208 0 C ADDxPRS 4862 1.151 1.211 0.2261 6.367e-11
27 2 rs11693602 0 C ADDxPRS 4862 0.8443 -1.16 0.246 1.486e-05
30 2 rs10929982 0 C ADDxPRS 4862 0.8431 -1.119 0.2632 2.571e-05
114 10 rs7077039 0 C ADDxPRS 4862 1.137 1.099 0.2718 3.042e-12
90 10 rs7917983 0 C ADDxPRS 4862 1.137 1.092 0.2747 6.06e-08
93 10 rs7901275 0 C ADDxPRS 4862 1.131 1.045 0.2959 1.529e-07
96 10 rs4074720 0 T ADDxPRS 4862 1.129 1.035 0.3007 9.892e-11
111 10 rs12243326 0 C ADDxPRS 4862 1.134 1.013 0.311 1.175e-10
24 2 rs6718526 0 T ADDxPRS 4862 0.8626 -0.9734 0.3303 7.612e-06
69 6 rs10806665 0 A ADDxPRS 4862 1.208 0.9518 0.3412 8.272e-06
99 10 rs7901695 0 C ADDxPRS 4862 1.122 0.9321 0.3513 1.184e-12
72 9 rs10817674 0 A ADDxPRS 4862 1.096 0.7628 0.4456 6.664e-05
144 12 rs11178648 0 T ADDxPRS 4862 0.9169 -0.7338 0.4631 3.053e-05
60 6 rs9465871 0 C ADDxPRS 4862 1.113 0.7321 0.4641 2.105e-06
138 12 rs10506626 0 A ADDxPRS 4862 0.9239 -0.67 0.5029 1.515e-05
204 16 rs9930506 0 G ADDxPRS 4862 0.9258 -0.6682 0.504 2.362e-06
165 15 rs2930291 0 A ADDxPRS 4862 1.083 0.662 0.508 2.581e-06
141 12 rs2270584 0 A ADDxPRS 4862 0.9255 -0.655 0.5125 1.607e-05
63 6 rs7767391 0 C ADDxPRS 4862 1.097 0.6383 0.5232 6.536e-06
174 16 rs2099106 0 T ADDxPRS 4862 1.087 0.6322 0.5273 2.003e-05
33 2 rs11688935 0 G ADDxPRS 4862 0.9252 -0.6213 0.5344 1.94e-05
168 15 rs2903265 0 A ADDxPRS 4862 1.085 0.6213 0.5344 1.145e-05
81 10 rs5015480 0 T ADDxPRS 4862 0.9317 -0.5996 0.5487 2.173e-05
6 1 rs6691406 0 A ADDxPRS 4862 0.9225 -0.5884 0.5563 3.237e-05
180 16 rs9939973 0 A ADDxPRS 4862 0.9351 -0.5822 0.5604 5.224e-07
183 16 rs9940128 0 A ADDxPRS 4862 0.9351 -0.5822 0.5604 5.224e-07
192 16 rs1121980 0 A ADDxPRS 4862 0.9409 -0.5294 0.5966 7.066e-07
36 2 rs10931347 0 A ADDxPRS 4862 0.9371 -0.5192 0.6036 2.89e-05
198 16 rs8050136 0 A ADDxPRS 4862 0.9484 -0.4563 0.6482 7.358e-08
129 12 rs11178531 0 A ADDxPRS 4862 0.9497 -0.4428 0.6579 1.168e-05
195 16 rs7193144 0 C ADDxPRS 4862 0.953 -0.4138 0.679 9.025e-08
189 16 rs17817288 0 A ADDxPRS 4862 0.9565 -0.3837 0.7012 1.157e-05
132 12 rs7132840 0 T ADDxPRS 4862 0.9584 -0.3634 0.7163 9.281e-06
39 2 rs17248501 0 C ADDxPRS 4862 0.9632 -0.3174 0.7509 9.476e-06
3 1 rs4655595 0 G ADDxPRS 4862 0.9495 -0.2668 0.7896 3.371e-06
150 12 rs7972188 0 C ADDxPRS 4862 0.9734 -0.2257 0.8214 1.471e-05
78 10 rs9422545 0 A ADDxPRS 4862 0.9793 -0.179 0.8579 9.986e-06
75 10 rs9326506 0 A ADDxPRS 4862 0.9808 -0.1665 0.8678 8.199e-06
87 10 rs7923866 0 T ADDxPRS 4862 0.9901 -0.08245 0.9343 2.583e-05
153 12 rs1510937 0 C ADDxPRS 4862 0.9927 -0.06232 0.9503 6.083e-06

p1.0000e-04

  CHR SNP BP A1 TEST NMISS OR STAT P GWAS.P
162 14 rs8012854 0 G ADDxPRS 4862 1.702 2.838 0.004541 4.036e-05
45 3 rs440646 0 G ADDxPRS 4862 1.359 2.146 0.03187 3.317e-05
177 16 rs11075123 0 A ADDxPRS 4862 0.7449 -1.851 0.06422 2.377e-05
159 12 rs7961581 0 C ADDxPRS 4862 1.312 1.782 0.07468 5.76e-06
51 6 rs10946398 0 C ADDxPRS 4862 1.248 1.53 0.1259 4.579e-05
57 6 rs9460546 0 G ADDxPRS 4862 1.248 1.53 0.1259 4.579e-05
12 2 rs4077463 0 A ADDxPRS 4862 0.767 -1.508 0.1316 2.638e-05
15 2 rs7593730 0 T ADDxPRS 4862 0.7748 -1.45 0.147 2.701e-05
9 2 rs12692592 0 G ADDxPRS 4862 0.7973 -1.307 0.1913 3.803e-05
105 10 rs4132670 0 A ADDxPRS 4862 1.207 1.27 0.2041 1.873e-12
108 10 rs10787472 0 C ADDxPRS 4862 1.184 1.201 0.2297 4.485e-11
27 2 rs11693602 0 C ADDxPRS 4862 0.81 -1.195 0.232 1.461e-05
120 10 rs10885409 0 C ADDxPRS 4862 1.183 1.193 0.2328 1.078e-10
48 3 rs3846119 0 T ADDxPRS 4862 0.7211 -1.163 0.245 2.471e-05
30 2 rs10929982 0 C ADDxPRS 4862 0.8107 -1.141 0.2537 2.574e-05
123 10 rs11196208 0 C ADDxPRS 4862 1.17 1.12 0.2626 6.657e-11
96 10 rs4074720 0 T ADDxPRS 4862 1.156 1.03 0.3032 1.034e-10
90 10 rs7917983 0 C ADDxPRS 4862 1.155 1.018 0.3086 6.215e-08
93 10 rs7901275 0 C ADDxPRS 4862 1.154 1.012 0.3116 1.539e-07
114 10 rs7077039 0 C ADDxPRS 4862 1.148 0.9827 0.3258 3.196e-12
24 2 rs6718526 0 T ADDxPRS 4862 0.8388 -0.96 0.337 7.672e-06
99 10 rs7901695 0 C ADDxPRS 4862 1.145 0.917 0.3592 1.297e-12
69 6 rs10806665 0 A ADDxPRS 4862 1.239 0.8914 0.3727 8.044e-06
111 10 rs12243326 0 C ADDxPRS 4862 1.14 0.8745 0.3818 1.319e-10
33 2 rs11688935 0 G ADDxPRS 4862 0.8854 -0.8075 0.4194 2.032e-05
165 15 rs2930291 0 A ADDxPRS 4862 1.122 0.7936 0.4274 2.677e-06
36 2 rs10931347 0 A ADDxPRS 4862 0.8979 -0.7146 0.4749 3.021e-05
168 15 rs2903265 0 A ADDxPRS 4862 1.115 0.6869 0.4921 1.168e-05
81 10 rs5015480 0 T ADDxPRS 4862 0.9073 -0.6832 0.4945 2.151e-05
174 16 rs2099106 0 T ADDxPRS 4862 1.11 0.6542 0.513 1.803e-05
144 12 rs11178648 0 T ADDxPRS 4862 0.9124 -0.6444 0.5193 3.166e-05
72 9 rs10817674 0 A ADDxPRS 4862 1.098 0.6433 0.52 6.848e-05
60 6 rs9465871 0 C ADDxPRS 4862 1.119 0.6392 0.5227 2.061e-06
138 12 rs10506626 0 A ADDxPRS 4862 0.9189 -0.5949 0.5519 1.575e-05
141 12 rs2270584 0 A ADDxPRS 4862 0.9212 -0.5777 0.5634 1.67e-05
63 6 rs7767391 0 C ADDxPRS 4862 1.099 0.5397 0.5894 6.32e-06
204 16 rs9930506 0 G ADDxPRS 4862 0.9337 -0.4948 0.6208 2.195e-06
6 1 rs6691406 0 A ADDxPRS 4862 0.9236 -0.4793 0.6318 3.378e-05
189 16 rs17817288 0 A ADDxPRS 4862 0.9397 -0.4462 0.6554 1.132e-05
129 12 rs11178531 0 A ADDxPRS 4862 0.9393 -0.4457 0.6558 1.222e-05
180 16 rs9939973 0 A ADDxPRS 4862 0.9419 -0.4317 0.666 4.895e-07
183 16 rs9940128 0 A ADDxPRS 4862 0.9419 -0.4317 0.666 4.895e-07
3 1 rs4655595 0 G ADDxPRS 4862 0.9127 -0.3903 0.6963 3.151e-06
132 12 rs7132840 0 T ADDxPRS 4862 0.9481 -0.3793 0.7045 9.68e-06
192 16 rs1121980 0 A ADDxPRS 4862 0.9489 -0.3791 0.7046 6.612e-07
39 2 rs17248501 0 C ADDxPRS 4862 0.9551 -0.3218 0.7476 9.344e-06
198 16 rs8050136 0 A ADDxPRS 4862 0.9594 -0.2964 0.7669 6.875e-08
195 16 rs7193144 0 C ADDxPRS 4862 0.9641 -0.2611 0.794 8.498e-08
150 12 rs7972188 0 C ADDxPRS 4862 0.9637 -0.256 0.7979 1.463e-05
78 10 rs9422545 0 A ADDxPRS 4862 0.9802 -0.1419 0.8871 9.772e-06
75 10 rs9326506 0 A ADDxPRS 4862 0.981 -0.1362 0.8917 8.039e-06
153 12 rs1510937 0 C ADDxPRS 4862 0.9814 -0.1324 0.8947 5.927e-06
87 10 rs7923866 0 T ADDxPRS 4862 0.9967 -0.02241 0.9821 2.551e-05